RNA-Sequencing of postnatal thymic epithelial and immune subsets
RNA-seq (gene expression) · human · 14 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Homo sapiens (human)
- Samples
- 14 samples: 14 samples, each with a distinct title — no replicated groupsGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE281832_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1185781 and SRA study SRP545071. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 14 sample titles: 14 distinct titles with little repetition. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM8630754 3 Month Postnatal Cortical Thymic Epithelial Cells
- GSM8630755 3 Month Postnatal Medullary Thymic Epithelial Cells (mTECII)
- GSM8630756 3 Month Postnatal Medullary Thymic Epithelial Cells (mTECI)
- GSM8630757 4 Month Postnatal B Cells
- GSM8630758 4 Month Postnatal Thymus Thymocytes
- GSM8630759 4 Month Postnatal Myeloid Dendritic Cells
- GSM8630760 4 Month Postnatal Plasmacytoid Dendritic Cells
- GSM8630761 5 Days Postnatal Thymus B Cells
- GSM8630762 5 Days Postnatal Thymus Thymocytes
- GSM8630763 5 Days Postnatal Thymus Cortical Thymic Epithelial Cells
- GSM8630764 5 Days Postnatal Thymus Myeloid Dendritic Cells
- GSM8630765 5 Days Postnatal Thymus Medullary Thymic Epithelial Cells (mTECII)
- GSM8630766 5 Days Postnatal Thymus Medullary Thymic Epithelial Cells (mTECI)
- GSM8630767 5 Days Postnatal Thymus Plasmacytoid Dendritic Cells
- GSE304598 Bulk RNA-seq time-course of human iPSc differentiation to thymic epithelial progenitors 33 samples shares epithelial, thymic
- GSE281833 RNA-Sequencing Analysis of Type-I and Type-II Interferon Effects on an In-Vitro Human Thymic Epithelium Model 24 samples shares rna-sequencing, thymic
- GSE326573 T-cell Multiomic Analysis Identifies Subsets and Mechanisms of Interaction with Epithelial Cells in Idiopathic Pulmonary Fibrosis 59 samples shares epithelial, subsets
- GSE216009 Immature neutrophil subsets and emergency granulopoiesis drive sepsis immune suppression and a specific extreme response to infection [WB_ECG] 96 samples shares subsets
- GSE335070 Malignant epithelial states drive immune dysfunction in ampulla of Vater carcinoma 75 samples shares epithelial
- GSE269877 Single-cell RNA-sequencing of BCG naïve and recurrent non-muscle invasive bladder cancer reveals a CD6/ALCAM-mediated immune-suppressive pathway 38 samples shares rna-sequencing
- GSE235711 Immune-Epithelial Interactions and Tissue Remodeling in the Inflammatory Respiratory Nasal Tract [scRNA-seq] 20 samples shares epithelial
- GSE243445 TNFSF13 insuffiency causes epithelial and immune disruption in the human colon 18 samples shares epithelial
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.